netReg

DOI: 10.18129/B9.bioc.netReg    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see netReg.

Network-Regularized Regression Models

Bioconductor version: 3.8

netReg fits linear regression models using network-penalization. Graph prior knowledge, in the form of biological networks, is being incorporated into the loss function of the linear model. The networks describe biological relationships such as co-regulation or dependency of the same transcription factors/metabolites/etc. yielding a part sparse and part smooth solution for coefficient profiles.

Author: Simon Dirmeier [aut, cre]

Maintainer: Simon Dirmeier <simon.dirmeier at web.de>

Citation (from within R, enter citation("netReg")):

Installation

To install this package, start R (version "3.5") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("netReg")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("netReg")

 

HTML R Script netReg
PDF   Reference Manual
Text   NEWS
Text   LICENSE

Details

biocViews FeatureExtraction, GraphAndNetwork, Network, Regression, Software, StatisticalMethod
Version 1.6.0
In Bioconductor since BioC 3.5 (R-3.4) (2 years)
License GPL-3 | BSL-1.0 + file LICENSE
Depends R (>= 3.4)
Imports Rcpp, stats
LinkingTo Rcpp, RcppArmadillo
Suggests testthat, knitr, rmarkdown, BiocStyle, lintr, lassoshooting
SystemRequirements C++11
Enhances
URL https://github.com/dirmeier/netReg
BugReports https://github.com/dirmeier/netReg/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package netReg_1.6.0.tar.gz
Windows Binary netReg_1.6.0.zip
Mac OS X 10.11 (El Capitan) netReg_1.6.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/netReg
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/netReg
Package Short Url http://bioconductor.org/packages/netReg/
Package Downloads Report Download Stats

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